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Diffstat (limited to 'src/cython/CMakeLists.txt')
| -rw-r--r-- | src/cython/CMakeLists.txt | 230 |
1 files changed, 230 insertions, 0 deletions
diff --git a/src/cython/CMakeLists.txt b/src/cython/CMakeLists.txt new file mode 100644 index 00000000..25cf952e --- /dev/null +++ b/src/cython/CMakeLists.txt @@ -0,0 +1,230 @@ +cmake_minimum_required(VERSION 2.8) +project(Cython) + +macro( find_the_lib placeholder THE_LIBS ) + set (THE_LIB_WE_FOUND "NO") + foreach(THE_LIB ${THE_LIBS}) + if(EXISTS ${THE_LIB}) + get_filename_component(THE_LIB_WE ${THE_LIB} NAME_WE) + if (NOT THE_LIB_WE_FOUND) + set (THE_LIB_WE_FOUND "YES") + set(returnValue "${THE_LIB_WE}") + endif(NOT THE_LIB_WE_FOUND) + endif(EXISTS ${THE_LIB}) + endforeach(THE_LIB ${THE_LIBS}) +endmacro( find_the_lib ) + +FIND_PROGRAM( PYTHON_PATH python ) +FIND_PROGRAM( CYTHON_PATH cython ) + +if(PYTHON_PATH AND CYTHON_PATH) + find_package(Boost REQUIRED COMPONENTS system REQUIRED) + + if(NOT Boost_FOUND) + message(FATAL_ERROR "NOTICE: This demo requires Boost and will not be compiled.") + else(NOT Boost_FOUND) + + set(GUDHI_CYTHON_EXTRA_COMPILE_ARGS "${GUDHI_CYTHON_EXTRA_COMPILE_ARGS}'-DBOOST_RESULT_OF_USE_DECLTYPE', ") + set(GUDHI_CYTHON_EXTRA_COMPILE_ARGS "${GUDHI_CYTHON_EXTRA_COMPILE_ARGS}'-DBOOST_ALL_NO_LIB', ") + set(GUDHI_CYTHON_LIBRARY_DIRS "${GUDHI_CYTHON_LIBRARY_DIRS}'${Boost_LIBRARY_DIRS}', ") + if(WIN32) + set( returnValue "" ) + find_the_lib (${returnValue} ${Boost_SYSTEM_LIBRARY}) + set(BOOST_SYSTEM_LIB_NAME ${returnValue}) + else() + set(BOOST_SYSTEM_LIB_NAME "boost_system") + endif() + set(GUDHI_CYTHON_LIBRARIES "${GUDHI_CYTHON_LIBRARIES}'${BOOST_SYSTEM_LIB_NAME}', ") + + # Gudhi and CGAL compilation option + if(MSVC) + set(GUDHI_CYTHON_EXTRA_COMPILE_ARGS "${GUDHI_CYTHON_EXTRA_COMPILE_ARGS}'/fp:strict', ") + else(MSVC) + set(GUDHI_CYTHON_EXTRA_COMPILE_ARGS "${GUDHI_CYTHON_EXTRA_COMPILE_ARGS}'-std=c++11', ") + endif(MSVC) + if(CMAKE_COMPILER_IS_GNUCXX) + set(GUDHI_CYTHON_EXTRA_COMPILE_ARGS "${GUDHI_CYTHON_EXTRA_COMPILE_ARGS}'-frounding-math', ") + endif(CMAKE_COMPILER_IS_GNUCXX) + if ("${CMAKE_CXX_COMPILER_ID}" STREQUAL "Intel") + set(GUDHI_CYTHON_EXTRA_COMPILE_ARGS "${GUDHI_CYTHON_EXTRA_COMPILE_ARGS}'-fp-model strict', ") + endif("${CMAKE_CXX_COMPILER_ID}" STREQUAL "Intel") + if (DEBUG_TRACES) + # For programs to be more verbose + set(GUDHI_CYTHON_EXTRA_COMPILE_ARGS "${GUDHI_CYTHON_EXTRA_COMPILE_ARGS}'-DDEBUG_TRACES', ") + endif() + + find_package(Eigen3 3.1.0) + + if (EIGEN3_FOUND) + # No problem, even if no CGAL found + set(GUDHI_CYTHON_EXTRA_COMPILE_ARGS "${GUDHI_CYTHON_EXTRA_COMPILE_ARGS}'-DCGAL_EIGEN3_ENABLED', ") + endif (EIGEN3_FOUND) + + # Copy recursively include, cython, example, doc and test repositories before packages finding + # Some tests and doc files are removed in case some packages are not found + file(COPY include DESTINATION ${CMAKE_CURRENT_BINARY_DIR}) + file(COPY cython DESTINATION ${CMAKE_CURRENT_BINARY_DIR}) + file(COPY example DESTINATION ${CMAKE_CURRENT_BINARY_DIR}) + file(COPY test DESTINATION ${CMAKE_CURRENT_BINARY_DIR}) + file(COPY doc DESTINATION ${CMAKE_CURRENT_BINARY_DIR}) + # Developper version for doc images + file(GLOB GUDHI_DEV_DOC_IMAGES "${CMAKE_SOURCE_DIR}/src/*/doc/*.png") + file(COPY ${GUDHI_DEV_DOC_IMAGES} DESTINATION "${CMAKE_CURRENT_BINARY_DIR}/doc/img") + file(GLOB GUDHI_DEV_DOC_IMAGES "${CMAKE_SOURCE_DIR}/src/*/doc/*.svg") + file(COPY ${GUDHI_DEV_DOC_IMAGES} DESTINATION "${CMAKE_CURRENT_BINARY_DIR}/doc/img") + # User version for doc images + file(GLOB GUDHI_USER_DOC_IMAGES "${CMAKE_SOURCE_DIR}/doc/*/*.png") + file(COPY ${GUDHI_USER_DOC_IMAGES} DESTINATION "${CMAKE_CURRENT_BINARY_DIR}/doc/img") + file(GLOB GUDHI_USER_DOC_IMAGES "${CMAKE_SOURCE_DIR}/doc/*/*.svg") + file(COPY ${GUDHI_USER_DOC_IMAGES} DESTINATION "${CMAKE_CURRENT_BINARY_DIR}/doc/img") + # Biblio + file(GLOB GUDHI_BIB_FILES "${CMAKE_SOURCE_DIR}/biblio/*.bib") + file(COPY ${GUDHI_BIB_FILES} DESTINATION "${CMAKE_CURRENT_BINARY_DIR}/doc/") + # Cubical complex perseus doc example + file(GLOB GUDHI_CUBICAL_PERSEUS_FILES "${CMAKE_SOURCE_DIR}/data/bitmap/*cubicalcomplexdoc.txt") + file(COPY ${GUDHI_CUBICAL_PERSEUS_FILES} DESTINATION "${CMAKE_CURRENT_BINARY_DIR}/doc/") + file(COPY "${CMAKE_SOURCE_DIR}/data/points/alphacomplexdoc.off" DESTINATION "${CMAKE_CURRENT_BINARY_DIR}/doc/") + file(COPY "${CMAKE_SOURCE_DIR}/data/distance_matrix/full_square_distance_matrix.csv" DESTINATION "${CMAKE_CURRENT_BINARY_DIR}/doc/") + # Persistence graphical tools examples + file(COPY "${CMAKE_SOURCE_DIR}/data/bitmap/3d_torus.txt" DESTINATION "${CMAKE_CURRENT_BINARY_DIR}/doc/") + file(COPY "${CMAKE_SOURCE_DIR}/data/points/tore3D_300.off" DESTINATION "${CMAKE_CURRENT_BINARY_DIR}/doc/") + + if (NOT CGAL_VERSION VERSION_LESS 4.8.1) + # If CGAL_VERSION >= 4.8.1, include subsampling + # CGAL things are done in CGAL_VERSION >= 4.8.0 + set(GUDHI_CYTHON_SUBSAMPLING "include 'cython/subsampling.pyx'") + else (NOT CGAL_VERSION VERSION_LESS 4.8.1) + # Remove alpha complex unitary tests + file(REMOVE ${CMAKE_CURRENT_BINARY_DIR}/test/test_subsampling.py) + file(REMOVE "${CMAKE_CURRENT_BINARY_DIR}/doc/subsampling_ref.rst") + file(REMOVE "${CMAKE_CURRENT_BINARY_DIR}/doc/subsampling_sum.rst") + file(REMOVE "${CMAKE_CURRENT_BINARY_DIR}/doc/subsampling_user.rst") + endif (NOT CGAL_VERSION VERSION_LESS 4.8.1) + if (NOT CGAL_VERSION VERSION_LESS 4.8.0) + # If CGAL_VERSION >= 4.8.0, include tangential complex + set(GUDHI_CYTHON_TANGENTIAL_COMPLEX "include 'cython/tangential_complex.pyx'") + set(GUDHI_CYTHON_BOTTLENECK_DISTANCE "include 'cython/bottleneck_distance.pyx'") + else (NOT CGAL_VERSION VERSION_LESS 4.8.0) + # Remove tangential complex and bottleneck unitary tests + file(REMOVE ${CMAKE_CURRENT_BINARY_DIR}/test/test_tangential_complex.py) + file(REMOVE ${CMAKE_CURRENT_BINARY_DIR}/test/test_bottleneck_distance.py) + file(REMOVE "${CMAKE_CURRENT_BINARY_DIR}/doc/bottleneck_distance_ref.rst") + file(REMOVE "${CMAKE_CURRENT_BINARY_DIR}/doc/bottleneck_distance_sum.rst") + file(REMOVE "${CMAKE_CURRENT_BINARY_DIR}/doc/bottleneck_distance_user.rst") + file(REMOVE "${CMAKE_CURRENT_BINARY_DIR}/doc/tangential_complex_ref.rst") + file(REMOVE "${CMAKE_CURRENT_BINARY_DIR}/doc/tangential_complex_sum.rst") + file(REMOVE "${CMAKE_CURRENT_BINARY_DIR}/doc/tangential_complex_user.rst") + endif (NOT CGAL_VERSION VERSION_LESS 4.8.0) + if (NOT CGAL_VERSION VERSION_LESS 4.7.0) + # If CGAL_VERSION >= 4.7.0, include alpha + set(GUDHI_CYTHON_ALPHA_COMPLEX "include 'cython/alpha_complex.pyx'") + else (NOT CGAL_VERSION VERSION_LESS 4.7.0) + # Remove alpha complex unitary tests + file(REMOVE ${CMAKE_CURRENT_BINARY_DIR}/test/test_alpha_complex.py) + file(REMOVE "${CMAKE_CURRENT_BINARY_DIR}/doc/alpha_complex_ref.rst") + file(REMOVE "${CMAKE_CURRENT_BINARY_DIR}/doc/alpha_complex_sum.rst") + file(REMOVE "${CMAKE_CURRENT_BINARY_DIR}/doc/alpha_complex_user.rst") + endif (NOT CGAL_VERSION VERSION_LESS 4.7.0) + if (NOT CGAL_VERSION VERSION_LESS 4.6.0) + # If CGAL_VERSION >= 4.6.0, include euclidean versions of witness complex + set(GUDHI_CYTHON_EUCLIDEAN_WITNESS_COMPLEX + "include 'cython/euclidean_witness_complex.pyx'\ninclude 'cython/euclidean_strong_witness_complex.pyx'\n") + else (NOT CGAL_VERSION VERSION_LESS 4.6.0) + # Remove alpha complex unitary tests + file(REMOVE ${CMAKE_CURRENT_BINARY_DIR}/test/test_euclidean_witness_complex.py) + file(REMOVE "${CMAKE_CURRENT_BINARY_DIR}/doc/euclidean_witness_complex_ref.rst") + file(REMOVE "${CMAKE_CURRENT_BINARY_DIR}/doc/euclidean_strong_witness_complex_ref.rst") + endif (NOT CGAL_VERSION VERSION_LESS 4.6.0) + + if(CGAL_FOUND) + # Add CGAL compilation args + if(CGAL_HEADER_ONLY) + set(GUDHI_CYTHON_EXTRA_COMPILE_ARGS "${GUDHI_CYTHON_EXTRA_COMPILE_ARGS}'-DCGAL_HEADER_ONLY', ") + else(CGAL_HEADER_ONLY) + if(WIN32) + set(GUDHI_CYTHON_LIBRARIES "${GUDHI_CYTHON_LIBRARIES}'CGAL-vc140-mt-4.7', ") + else(WIN32) + set(GUDHI_CYTHON_LIBRARIES "${GUDHI_CYTHON_LIBRARIES}'CGAL', ") + endif(WIN32) + set(GUDHI_CYTHON_LIBRARY_DIRS "${GUDHI_CYTHON_LIBRARY_DIRS}'${CGAL_LIBRARIES_DIR}', ") + endif(CGAL_HEADER_ONLY) + # GMP and GMPXX are not required, but if present, CGAL will link with them. + if(GMP_FOUND) + set(GUDHI_CYTHON_EXTRA_COMPILE_ARGS "${GUDHI_CYTHON_EXTRA_COMPILE_ARGS}'-DCGAL_USE_GMP', ") + if(WIN32) + set(GUDHI_CYTHON_LIBRARIES "${GUDHI_CYTHON_LIBRARIES}'libgmp-10', ") + else(WIN32) + set(GUDHI_CYTHON_LIBRARIES "${GUDHI_CYTHON_LIBRARIES}'gmp', ") + endif(WIN32) + set(GUDHI_CYTHON_LIBRARY_DIRS "${GUDHI_CYTHON_LIBRARY_DIRS}'${GMP_LIBRARIES_DIR}', ") + if(GMPXX_FOUND) + set(GUDHI_CYTHON_EXTRA_COMPILE_ARGS "${GUDHI_CYTHON_EXTRA_COMPILE_ARGS}'-DCGAL_USE_GMPXX', ") + set(GUDHI_CYTHON_LIBRARIES "${GUDHI_CYTHON_LIBRARIES}'gmpxx', ") + set(GUDHI_CYTHON_LIBRARY_DIRS "${GUDHI_CYTHON_LIBRARY_DIRS}'${GMPXX_LIBRARIES_DIR}', ") + endif(GMPXX_FOUND) + endif(GMP_FOUND) + endif(CGAL_FOUND) + + # Specific for Mac + if (${CMAKE_SYSTEM_NAME} MATCHES "Darwin") + set(GUDHI_CYTHON_EXTRA_COMPILE_ARGS "${GUDHI_CYTHON_EXTRA_COMPILE_ARGS}'-mmacosx-version-min=10.9', ") + set(GUDHI_CYTHON_EXTRA_LINK_ARGS "${GUDHI_CYTHON_EXTRA_LINK_ARGS}'-mmacosx-version-min=10.9', ") + endif(${CMAKE_SYSTEM_NAME} MATCHES "Darwin") + + # Loop on INCLUDE_DIRECTORIES PROPERTY + get_property(GUDHI_INCLUDE_DIRECTORIES DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} PROPERTY INCLUDE_DIRECTORIES) + foreach(GUDHI_INCLUDE_DIRECTORY ${GUDHI_INCLUDE_DIRECTORIES}) + set(GUDHI_CYTHON_INCLUDE_DIRS "${GUDHI_CYTHON_INCLUDE_DIRS}'${GUDHI_INCLUDE_DIRECTORY}', ") + endforeach() + set(GUDHI_CYTHON_INCLUDE_DIRS "${GUDHI_CYTHON_INCLUDE_DIRS}'${CMAKE_SOURCE_DIR}/${GUDHI_CYTHON_PATH}/include', ") + + if (TBB_FOUND) + set(GUDHI_CYTHON_EXTRA_COMPILE_ARGS "${GUDHI_CYTHON_EXTRA_COMPILE_ARGS}'-DGUDHI_USE_TBB', ") + set(GUDHI_CYTHON_LIBRARIES "${GUDHI_CYTHON_LIBRARIES}'tbb', 'tbbmalloc', ") + set(GUDHI_CYTHON_LIBRARY_DIRS "${GUDHI_CYTHON_LIBRARY_DIRS}'${TBB_LIBRARY_DIRS}', ") + set(GUDHI_CYTHON_INCLUDE_DIRS "${GUDHI_CYTHON_INCLUDE_DIRS}'${TBB_INCLUDE_DIRS}', ") + endif() + + # Generate cythonize_gudhi.py file to cythonize Gudhi + configure_file(cythonize_gudhi.py.in "${CMAKE_CURRENT_BINARY_DIR}/cythonize_gudhi.py" @ONLY) + # Generate gudhi.pyx - Gudhi cython file + configure_file(gudhi.pyx.in "${CMAKE_CURRENT_BINARY_DIR}/gudhi.pyx" @ONLY) + + add_custom_command( + OUTPUT "${CMAKE_CURRENT_BINARY_DIR}/gudhi.so" + WORKING_DIRECTORY ${CMAKE_CURRENT_BINARY_DIR} + COMMAND python "${CMAKE_CURRENT_BINARY_DIR}/cythonize_gudhi.py" "build_ext" "--inplace") + + add_custom_target(cython ALL DEPENDS "${CMAKE_CURRENT_BINARY_DIR}/gudhi.so" + COMMENT "Do not forget to add ${CMAKE_CURRENT_BINARY_DIR}/ to your PYTHONPATH before using examples or tests") + + if(UNIX) + set( ENV{PYTHONPATH} $ENV{PYTHONPATH}:${CMAKE_CURRENT_BINARY_DIR}/ ) + endif(UNIX) + + # Unitary tests are available through py.test + find_program( PYTEST_PATH py.test ) + if(PYTEST_PATH) + add_test( + NAME gudhi_cython_py_test + WORKING_DIRECTORY ${CMAKE_CURRENT_BINARY_DIR} + COMMAND ${PYTEST_PATH}) + set_tests_properties(gudhi_cython_py_test PROPERTIES ENVIRONMENT "PYTHONPATH=${CMAKE_CURRENT_BINARY_DIR}") + endif(PYTEST_PATH) + + # Documentation generation is available through sphinx + find_program( SPHINX_PATH sphinx-build ) + if(SPHINX_PATH) + if (UNIX) + add_custom_target(sphinx + WORKING_DIRECTORY ${CMAKE_CURRENT_BINARY_DIR}/doc + DEPENDS "${CMAKE_CURRENT_BINARY_DIR}/gudhi.so" + COMMAND make html doctest) + else (UNIX) + add_custom_target(sphinx + WORKING_DIRECTORY ${CMAKE_CURRENT_BINARY_DIR}/doc + COMMAND make.bat html) + endif (UNIX) + endif(SPHINX_PATH) + endif(NOT Boost_FOUND) +endif(PYTHON_PATH AND CYTHON_PATH) |